Fig. 5

Deciphering the spatial structure of the homogenously staining region (HSR) in the K562 cell line. a Location of the amplification region on chr 9, 13, and 22. The y-axis represents the reads count that was normalized based on the total number of reads mapped per sample. b Circos plots of the chromatin interactions mediated by amplification regions across all 23 chromosomes in K562 cell lines. The interactions between chromosomes 9, 13, and 22 are marked with red lines. c,d Comparison of chromatin contact matrix of amplification region (Chr13:90,423,781–92,475,244, Chr13:92,943,122–93,351,872, and Chr13:93,848,028–94,027,981) between K562 cell line and healthy human peripheral blood cells (control). e Assembling the amplified regions from “A” to “F” with split reads. The breakpoint of the amplification regions is marked in the figure. f Metaphase analysis and DNA FISH to validate the location of the ABL1 amplification region and the BCR amplification region in the K562 cell line. FISH probes for the ABL1 amplification region and the BCR amplification region were directly labelled with Alexa Fluor 555 (red) and Alexa Fluor 488 (green), respectively